Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Bach1

Cell type

Cell type Class
Lung
Cell type
Lung tumors
NA
NA

Attributes by original data submitter

Sample

source_name
Lung tumor
antibody
BACH1
strain
mixed C57BL/6-129/Sv
genotype/variation
KrasG12D/+
tissue
Lung tumor
agent
NAC-treated (drinking water of mice)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were sonicated and the DNA sheared to an average length of 300–500 bp. Genomic DNA (input) was prepared by incubating chromatin aliquots with RNase, proteinase K and heat for de-crosslinking, followed by ethanol precipitation. Pellets were resuspended and the resulting DNA was quantified on a NanoDrop spectrophotometer. Extrapolation to the original chromatin volume allowed quantitation of the total chromatin yield. An aliquot of chromatin (30 mg) was pre-cleared with protein G agarose beads (Life technologies). Genomic DNA regions of interest were isolated using 4 mg antibody recognizing BACH1 (AF577, R&D Illumina sequencing libraries were prepared from the ChIP and input DNAs by the standard consecutive enzymatic steps of end-polishing, dA-addition, and adaptor ligation. After a final PCR amplification step, the resulting DNA libraries were quantified and sequenced on Illumina's NextSeq 500 (75-nt reads, single end).

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
39935866
Reads aligned (%)
94.4
Duplicates removed (%)
56.4
Number of peaks
1517 (qval < 1E-05)

mm9

Number of total reads
39935866
Reads aligned (%)
94.2
Duplicates removed (%)
56.5
Number of peaks
1505 (qval < 1E-05)

Base call quality data from DBCLS SRA